Prevention of precipitate blockage in microfluidic channels

ABSTRACT

The present invention provides novel microfluidic devices and methods for preventing/ameliorating formation of precipitate blockages in microfluidic devices. In particular the devices and methods of the invention utilize microchannels of specific cross-sectional configuration and of specific arrangement as well as application of AC current orthogonal to the direction of fluid flow, in order to preventing/ameliorating formation of precipitate blockages in microfluidic devices.

CROSS REFERENCE TO RELATED APPLICATIONS

This application claims the benefit of U.S. Provisional PatentApplication No. 60/338,040, filed Nov. 13, 2001, which is incorporatedherein by reference in its entirety for all purposes.

BACKGROUND OF THE INVENTION

When carrying out chemical or biochemical analyses, assays, syntheses orpreparations, a large number of separate manipulations are performed onthe material(s) or component(s) to be assayed, including measuring,aliquotting, transferring, diluting, mixing, separating, detecting,incubating, etc. Microfluidic technology miniaturizes thesemanipulations and integrates them so that they can be executed withinone or a few microfluidic devices. For example, pioneering microfluidicmethods of performing biological assays in microfluidic systems havebeen developed, such as those described by U.S. Pat. Nos. 5,942,443 and6,235,471.

Of particular concern in numerous applications utilizing microfluidicdevices is the dilution or mixing of, e.g., samples, reagents, analytes,etc. often within the small-scale microchannels comprising the device.Additionally, in many experimental/assay situations it is desirous tostore biological or other molecules in storage solutions such asdimethyl sulfoxide (DMSO). However, because storage solutions, such asDMSO, can adversely affect certain types of assays, etc. and/or in orderto present the molecule(s) in the storage solution (e.g., DMSO) in thecorrect concentration, such solution is typically diluted with otherfluidic materials. Unfortunately, sudden diluting of some storagesolutions (e.g., DMSO) can cause precipitates to come out of solutionand possibly create a precipitate blockage of a microchannel or othermicroelement in the microfluidic device. Additionally, unwantedprecipitate blockages can also arise through, e.g., precipitation ofsalts, proteins, etc. due to, e.g., changes in reaction conditions (suchas temperature, concentration, pH, etc.) in the microfluidic elements.Because of the possibly extremely small scale diameters of themicrofluidic elements in microfluidic devices, even small amounts ofprecipitate can achieve either total or partial blockage of microfluidicelements. Of course, such blockages can adversely impact flow throughthe microfluidic elements and thus adversely impact the assays, etc.being carried out in the microfluidic device. Furthermore, partialand/or complete blockages can, in some applications, adversely effectsample plug shape (e.g., width) etc. This is especially true in highthroughput systems where even small interferences can severely decreasethroughput efficiency.

A welcome addition to the art would be the ability to prevent ordecrease the formation of blockages in microfluidic elements due toprecipitation (especially due to that of DMSO). The current inventiondescribes and provides these and other features by providing newmethods, microchannels, and microfluidic devices that meet these andother goals.

SUMMARY OF THE INVENTION

The present invention provides methods, systems, kits, and devices forreducing, preventing or ameliorating precipitate blockages inmicrofluidic channels in microfluidic devices. Molecules, fluids,fluidic materials, etc. are flowed through specifically configuredmicrofluidic elements (e.g., microchannels) in a microfluidic device.The specifically configured microfluidic elements comprise areas ofenlarged cross-sectional geometry at the intersection of microfluidicelements, specifically arranged/intersected microchannels, allowinggradual/controlled dilution of precipitatable and/or precipitateinducing materials. The systems of the invention optionally also includefeatures for applying an AC electric field orthogonal to the directionof fluid flow in the microchannels and/or microchannels structurallyconfigured to permit application of an AC electric field orthogonal tothe direction of fluid flow in a microchannel.

In one aspect, methods of preventing or ameliorating formation ofprecipitate blockages in a microfluidic element are provided. Themethods comprise: flowing a first fluidic material through a firstmicrochannel which channel comprises a first region and one more secondregion (which is downstream from the first region and is of greatercross-sectional area than the first or third region) and one or morethird region (which is downstream from both the first region and thesecond region); flowing at least a second fluidic material through asecond microchannel and into the second region of the firstmicrochannel; and flowing the mixture of the first and second fluidicmaterials (and any precipitate) into the third region of themicrochannel. In some embodiments, the cross-sectional area of thesecond region of the first microchannel is at least 2 times, at least 5times, at least 10 times, at least 15 times, or at least 20 times ormore greater in cross-sectional area than the first or third regions ofthe first microchannel. In yet other embodiments the cross-sectionalarea of the second region is great enough to prevent or ameliorateprecipitate blockage of the microchannel by precipitate. In someembodiments, the second fluidic material comprises a buffer or water.Furthermore, other embodiments comprise applying an AC electric fieldorthogonal to the direction of fluid flow in the first microchannel.

In another aspect, the current invention comprises methods of reducingprecipitate blockage in a microfluidic channel, comprising: flowing afirst fluidic material into at least a first microchannel; flowing aselected amount of a second fluidic material into the first microchannelfrom at least a second microchannel (thus, diluting the first fluidicmaterial and producing a precipitate at a concentration which permitsflow of the fluidic materials and any precipitate through the firstmicrochannel). In some embodiments, the first fluidic material comprisesDMSO, and the second fluidic material comprises a buffer or water. Inother embodiments, the first fluidic material is diluted by a selectamount of the second fluidic material so as to dilute the first fluidicmaterial by at least about 2-fold, at least about 3-fold, at least about4-fold, or at least about 5-fold or more. In other embodiments thedilution of the first fluidic material is repeated (in either equalincrements or in unequal increments) until a selected percent dilutionof the first fluidic material is achieved. Additionally, the area of thefirst microchannel where the second fluidic material enters to dilutethe first fluidic material is optionally of greater cross-sectional areathan the areas both upstream and downstream of such enlarged area.Furthermore, other embodiments comprise wherein an AC electric field isapplied orthogonal to the direction of fluid flow in the firstmicrochannel.

In another aspect, the invention includes devices that are structurallyconfigured to reduce precipitate blockage in microfluidic channels ofthe devices, such devices comprising: a first microchannel with a firstregion, a downstream second region which is greater in cross-sectionalarea than the first or third regions, and a third region that isdownstream of both the first and second regions; at least a secondmicrochannel fluidly coupled with the second region of the firstmicrochannel; a source of a first fluidic material fluidly coupled tothe first microchannel; a source of a second fluidic material fluidlycoupled to the second microchannel and which material will form or causea precipitate when mixed with the first fluidic material; a fluiddirection system that controllably moves the fluidic materials throughthe microchannels in such a way that any precipitate formed oraccumulated is present at a concentration or amount small enough not toinhibit flow of fluidic materials through the microchannels of thedevice. In some embodiments, the first fluidic material comprises DMSOand the second fluidic material comprises buffer or water. In otherembodiments, the second region of the first microchannel is at least 2times, at least 5 times, at least 10 times, at least 15 times, or atleast 20 times or more greater in cross-sectional area than the first orthird region of the first microchannel. In yet other embodiments, thecross-sectional area of the second region is great enough to preventprecipitate blockage of the microchannel. Furthermore, other embodimentsinclude features for applying an AC electric field orthogonal to thedirection of fluid flow in the first microchannel and/or structurallyconfigured microchannels that permit application of an AC electric fieldorthogonal to the direction of fluid flow in the microchannel.

In another aspect, the invention includes devices that are structurallyconfigured to reduce precipitate blockage in microfluidic channels ofthe devices, such devices comprising: a first microchannel; at least asecond microchannel fluidly coupled to the first microchannel; a sourceof a first fluidic material coupled to the first microchannel; a sourceof a second fluidic material coupled to the second microchannel; and afluid direction system that controllably moves a selected amount of thesecond fluidic material from the second microchannel into the firstmicrochannel, thereby, producing a precipitate at a concentration whichstill permits flow of the precipitate and the fluidic materials throughthe first microchannel. Optionally, the device also comprises featuresfor applying an AC electric field orthogonal to the direction of fluidflow in the first microchannel.

In some embodiments, the first fluidic material comprises DMSO and thesecond fluidic material comprises buffer or water. In variousembodiments, the fluid direction system directs dilution of the firstfluidic material by the second fluidic material by at least 2-fold, atleast 3-fold, at least 4-fold, at least 5-fold or more greater thanfirst fluidic material. In other embodiments, the fluid direction systemdirects multiple additions (optionally wherein the additions are ofequal or unequal volume or wherein the first fluidic material orcombination of first and second fluidic materials are diluted in equalor unequal percentages each time) of the second fluidic material to thefirst fluidic material or to a mixture of the first and second fluidicmaterials. In yet other embodiments, the first microchannel comprises afirst region upstream of one or more second region which is greater incross-sectional area than the first or third region and which isupstream of the one or more third region.

BRIEF DESCRIPTION OF THE FIGURES

FIG. 1, panels A and B are schematic views of a specifically configuredcross-sectional microchannel region and of specifically arrangedmicrochannels used to prevent/ameliorate formation of precipitateblockages.

FIG. 2, panels A, B, and C are schematic views of optional embodimentsof the invention comprising microchannels of specific geometry andarrangement.

FIG. 3, is a schematic view of an integrated system comprising amicrofluidic device incorporating the elements of the invention.

FIG. 4, is a view showing adherence of precipitated enzyme to the wallsof a microchannel.

FIG. 5, is a view showing reduction of adherence of precipitated enzymeto the walls of a microchannel.

DETAILED DISCUSSION OF THE INVENTION

The methods and devices of the current invention directly address andsolve problems associated with control and manipulation of fluidicmaterial in microfluidic devices, especially dilution, mixing ortransport of fluidic materials comprising precipitatable material, suchas DMSO, or material comprising precipitate. Briefly, the inventionprovides devices and methods for: altering microchannel cross-sectionalgeometry in order to prevent formation of precipitate blockage of, e.g.,microchannels; control of mixing together of fluidic materials (ofeither different types or of similar types) to, e.g., dilute a fluidicmaterial in a manner which prevents/ameliorates formation of precipitateblockages of the microelements of the microfluidic device; applying anAC electric field orthogonal to the direction of fluid flow to helpprevent/reduce precipitate sticking to the walls of the microchannel. Asused herein, the term “cross-sectional geometry,” “channel geometry,”“cross-sectional configuration,” etc. is to be understood to optionallyinclude the dimension/size of the microchannel region (i.e., of theelements of the channel such as height, depth, wall curvature, etc.) aswell as the layout/pattern of the microchannel region (i.e., thearrangement of the elements of the channel such as wall height,curvature, placement of any troughs/ridges/etc.). In other words, eitheror both of: the dimension/size of a microchannel region (or itselements) or the layout/pattern of a microchannel region (i.e., of itselements) are included within its “cross-sectional geometry” and aremanipulated herein in order to prevent/ameliorate formation ofprecipitate blockages.

The methods and devices of the current invention used to control andmanipulate transport/dilution/mixing of fluidic materials are flexibleand can be utilized in many different embodiments of microfluidicdevices which perform myriad assays, tasks, etc. The methods and devicesherein can be utilized in microfluidic devices to, e.g., maximizethroughput time, when such is applicable to the assay(s) beingperformed. For example, the screening of large libraries (or extremelylarge libraries, etc) such as combinatorial libraries can be timeconsuming due to the aggregation of time requirements or delays causedby blockages in the microfluidic elements due to precipitation as aresult of transport/diluting/mixing/reconstituting/etc. of samples. Thecombination of elements which constitute the methods and devices of thecurrent invention cleverly allow for optimizing of throughput bydecreasing or eliminating such precipitate blockage, thus substantiallydecreasing time requirements for assays in microfluidic devices.Furthermore, the methods and devices of the present invention allowprevention and/or amelioration of precipitate blockage in non-highthroughput systems (in fact, in any and all microfluidic systems) thussubstantially improving reliability and accuracy of the systems.

In numerous ways, the current invention differs from other previous,methods and devices used for transport/mixing/diluting of fluidicmaterials in microfluidic devices in such a way as to preventprecipitate blockages. For example, the current invention utilizes,e.g., specific alterations of microchannel cross-sectional geometry toprevent/ameliorate formation of precipitate blockages in microfluidicchannels. Additionally, the current invention utilizes differences inratios of the various fluidic materials that are mixed together in themicrofluidic devices, thus controlling the amount of any precipitationformed (e.g., creating sequential small amounts of precipitate which arenot large enough to block the microfluidic elements and/or which areflowed through the microfluidic elements without causing a precipitateblockage). Furthermore, the current invention optionally utilizes theapplication of an AC electric current across a microchannel orthogonalto the direction of fluid flow to help prevent precipitate fromadhering/sticking to the walls of the microchannel.

The use of these devices/methods, either in combination or alone, allowsfor adjustment and modification of transport/mixing/dilution of fluidicmaterials in order to, e.g., prevent/ameliorate precipitate blockages innumerous assay situations, etc. For example, by accounting for differentamounts of precipitation created by different assays/buffers, etc. indifferent situations, e.g., due to temperature, flow speed, etc., thevarious aspects/embodiments of the current invention can be tailored toprevent/ameliorate any precipitate blockages.

The methods/devices of the current invention are applicable to numeroustypes of precipitation from myriad sources. For example, precipitateformation (which can lead to blockages of microchannels) can arise fromchanges in temperature within microfluidic elements (e.g., cooling down)or from a chemical reaction (e.g., an insoluble product formed), notjust from dilutions, etc. Additionally, precipitation can arise fromproteins, e.g., due to aggregation of denatured proteins, etc.Furthermore, precipitation can be present in biological samples assayedin a microchannel (e.g., crystals in urine, blood, environmental samples(e.g., water, etc.)).

The present invention also optionally includes various elements involvedin, e.g., reconstitution of stored samples, temperature control, fluidtransport mechanisms, detection and quantification of molecularinteractions (e.g., fluorescence detectors), robotic devices for, e.g.,positioning of components or devices involved, etc.

I. Methods and Devices of the Invention

Manipulation/control (e.g., transport/diluting/mixing, etc.) ofmolecules, compounds, etc. in microfluidic devices is often done withinone or more microchannels (sometimes referred to herein as microfluidicchannels) or microreservoirs, etc. The term “microfluidic”, as usedherein, refers to a device component, e.g., chamber, channel, reservoir,or the like, that includes at least one cross-sectional dimension, suchas depth, width, length, diameter, etc. of from about 0.1 micrometer toabout 500 micrometers. Examples of microfluidic devices are detailed in,e.g., U.S. Pat. Nos. 5,942,443 and 5,880,071, both of which areincorporated herein by reference for all purposes.

In general, microfluidic devices are planar in structure and areconstructed from an aggregation of planar substrate layers wherein thefluidic elements, such as microchannels, etc., are defined by theinterface of the various substrate layers. The microchannels, etc. areusually etched, embossed, molded, ablated or otherwise fabricated into asurface of a first substrate layer as grooves, depressions, or the like.A second substrate layer is subsequently overlaid on the first substratelayer and bonded to it in order to cover the grooves, etc. in the firstlayer, thus creating sealed fluidic components within the interiorportion of the device. Optionally, either one or both substrate layerhas microchannels devised within it. Such microchannels can be alignedonce on top of another when the substrate layers are joined together.Additionally, such microchannels as are thus constructed can besymmetrical (i.e., the microchannel on the first substrate is the sameshape as that of the microchannel on the second substrate thus forming asymmetrical microchannel when the two substrate layers are joined, orsuch microchannels can be asymmetrical (i.e., the microchannel on thefirst substrate is a different shape as that of the microchannel on thesecond substrate thus forming an asymmetrical channel when the twosubstrate layers are joined. Additionally, open-well elements can beformed by making perforations in one or more substrate layer whichperforation optionally can correspond to depressed microreservoir,microchannel, etc. areas on the complementary layer. Such microfluidicelements (e.g., the above microchannels) can be used to construct thespecific microchannel shapes and/or arrangements of the presentinvention which prevent/ameliorate precipitate blockage formation (see,descriptions herein).

Manufacturing of microscale elements into the surface of the substratescan be carried out through any number of microfabrication techniquesthat are well known in the art. For example, lithographic techniques areoptionally employed in fabricating, e.g., glass, quartz or siliconsubstrates, using methods well known in the semiconductor manufacturingindustries such as photolithographic etching, plasma etching or wetchemical etching. Alternatively, micromachining methods such as laserdrilling, micromilling and the like are optionally employed. Similarly,for polymeric substrates, well known manufacturing techniques may alsobe used. These techniques include injection molding or stamp moldingmethods wherein large numbers of substrates are optionally producedusing, e.g., rolling stamps to produce large sheets of microscalesubstrates or polymer microcasting techniques where the substrate ispolymerized within a micromachined mold. Furthermore, variouscombinations of such techniques, as described above and others wellknown to those skilled in the art, are optionally combined to producethe microelements present in embodiments of the current invention (e.g.,the specifically arranged and/or configured microchannels, etc. used toprevent/ameliorate precipitate blockages).

As stated above, the substrates used to construct the microfluidicdevices of the invention are typically fabricated from any number ofdifferent materials, depending upon, e.g., the nature of the samples tobe assayed, the specific reactions and/or interactions being assayedfor, etc. Additionally, the choice of substrate material is optionallyinfluenced by the type/amount of any expected precipitate. For example,if it is expected that a protein precipitate will form in a particularsituation, then a substrate can be chosen which does not allow proteinto adhere to it (such adherence would exacerbate any precipitateblockages formed). For some applications, the substrate can optionallycomprise a solid non-porous material. For example, the substrate layerscan be composed of, e.g., silica-based materials (such as glass, quartz,silicon, fused silica, or the like), polymeric materials or polymercoatings on materials (such as polymethylmethacrylate, polycarbonate,polytetrafluoroethylene, polyvinylchloride, polydimethylsiloxane,polysulfone, polystyrene, polymethylpentene, polypropylene,polyethylene, polyvinylidine fluoride, acrylonitrile-butadiene-styrenecopolymer, parylene or the like), ceramic materials, metal materials,etc.

The surface of a substrate layer may be of the same material as thenon-surface areas of the substrate or, alternatively, the surface maycomprise a coating on the substrate base. Furthermore, if the surface iscoated, the coating optionally can cover either the entire substratebase or can cover select subparts of the substrate base. In someoptional embodiments of the present invention, areas within themicrofluidic devices where it is expected that precipitate blockageswill form (e.g., at intersections/junctions of microchannels) thesubstrate which comprises such microchannel is optionally coated with amaterial to, e.g., reduce surface adherence of any precipitate and whichis different than the base substrate. For example, in the case of glasssubstrates, the surface of the glass of the base substrate may betreated to provide surface properties that are compatible and/orbeneficial to one or more sample or reagent being used. Such treatmentsinclude derivatization of the glass surface, e.g., through silanizationor the like, or through coating of the surface using, e.g., a thin layerof other material such as a polymeric or metallic material.Derivatization using, e.g., silane chemistry is well known to those ofskill in the art and can be readily employed to add amine, aldehyde orother functional groups to the surface of the glass substrate, dependingupon the desired surface properties. Further, in the case of metalsubstrates, metals that are not easily corroded under potentially highsalt conditions, applied electric fields, and the like are optionallypreferred.

Although described in terms of a layered planar body structure, it willbe appreciated that microfluidic devices in general and the presentinvention in particular can take a variety of forms, includingaggregations of various fluidic components such as capillary tubes,individual chambers, arrangement of channel(s) etc., that are piecedtogether to provide the integrated elements of the complete device. Forexample, FIG. 2, panels A, B, and C, illustrates one of many possiblearrangements of the elements of the present invention. In one suchpossible arrangement, as shown in FIG. 2, body structure 202 has mainchannels 204 and 206 disposed therein, which are fluidly connected tovarious reservoirs that can optionally contain, e.g., buffer, reagents,etc. Channel 204 as presented in FIG. 2 comprises a microchannel whosecross-sectional geometry has been specifically configured toprevent/minimize the formation of precipitate blockages in themicrochannel. Channel 206 as presented in FIG. 2 comprises amicrochannel which is specifically configured to intersect with othermicrochannels to gradually mix/dilute one or more fluidic material insuch a way as to prevent/minimize the formation of precipitate blockagesin the microchannel. Both channel 204 and channel 206 are optionallyconfigured to allow an AC electric current orthogonal to the directionof fluid flow to help prevent/ameliorate precipitate adhesion to themicrochannel walls (see, below).

The microfluidic devices of the invention typically include at least onemain channel (such as channel 204 or 206 in FIG. 2), where, e.g.,analysis, separations, dilutions/mixing, etc. are performed, but mayinclude two or more (or optionally, many more) main channels in order tomultiplex the number of analyses being carried out in the microfluidicdevice at any given time. Typically, a single device will include fromabout 1 to about 100 or more separate main channels which mainchannel(s) are often ones specifically configured in cross-sectionalareas and/or in arrangement of intersections with other microchannelsand/or optionally with AC electric current delivered across themicrochannel orthogonal to the direction of fluid flow, all to preventor minimize formation of precipitate blockages.

In most cases, the main channel is intersected by at least one othermicroscale channel disposed within the body of the device. Typically,the one or more additional channels are used, e.g., to bring dilutingfluidic materials, samples, test compounds, assay reagents, etc. intothe main channel (e.g., 204 or 206), in order to carry out the desiredassay, separation, etc. Additionally, the main channel can beintersected by one or more shunt microchannel as well. In the presentinvention, a dilution buffer is typically added into a main channelupstream of a shunt channel (see, description of FIG. 1, infra), so thatthe downstream increase in flow rate due to the addition of buffermaterial may be counteracted by the reduction in pressure due to theshunt channel. Reagent materials, on the other hand, are typically addeddownstream of a shunt channel so that they are added after thedownstream flow rate in the main channel has been reduced so thatsmaller quantities of reagent are added. At many of the intersections ofsuch channels with main channels, etc. the specificconfigurations/arrangements and/or AC currents are positioned so as toprevent/ameliorate precipitate blockages.

The reservoirs or wells of microfluidic devices incorporating themethods and devices of the current invention are locations at whichsamples, components, reagents and the like are added into the device forassays, etc. to take place. Introduction of these elements into thesystem is carried out as described herein. The reservoirs are typicallyplaced so that the sample or reagent, etc. is added into the systemupstream from the location at which it is used. For example, a dilutionbuffer is added upstream from the source of a reagent (e.g., a moleculestored in a concentrated form in a DMSO solution) if the reagent sampleis to be diluted before reaction with the reagent. Alternatively, wastewells or reservoirs are used to store samples after a reaction or assayhas been completed. The removal of the completed samples provides spacein the channels to load and incubate other samples. In this fashion, thedevices of the invention are optionally used in a high throughputmanner. The throughput is maintained by continuously loading, incubatingand unloading samples into and from the incubation channels of thedevice.

In these systems, a “capillary element” (a channel in which fluidicmaterials can be moved from a source to a microscale element) or othersimilar pipettor element is temporarily or permanently coupled to asource of fluidic material(s). The source of the fluidic material can beinternal or external to the microfluidic device with the capillaryelement. Example sources include microwell plates, wells or reservoirsin the body of the microscale device itself, etc.

For example, the source of a cell type, sample, buffer, etc. can be amicrowell plate external to the body structure of the microfluidicdevice, having at least one well with such fluidic material and/orbuffer plug(s) to be drawn into the device within the microwell plate.Alternatively, the fluidic material source is a well or reservoirdisposed on the surface or within the body of the structure of themicrofluidic device; a container external to the body structure of themicrofluidic device comprising at least one compartment comprising thefluidic material; or a solid phase structure comprising the fluidicmaterial in lyophilized or otherwise dried form.

A. Illustrative Examples of Sample Microchannels whichPrevent/Ameliorate Formation of Precipitate Blockage

As stated above, the transport, dilution and/or mixing of fluidicmaterials in microfluidic devices can cause precipitation of varioussolutes out of solution. Additionally, precipitate in microfluidicdevices can arise from, e.g., changes in temperature, formation ofinsoluble products, accumulation of inclusions/impurities frombiological samples (e.g., blood, urine, environmental samples, etc.).Optional embodiments of the methods and devices of the present inventionare equally applicable to prevention/amelioration of formation ofprecipitate blockages caused through any of the above, or similar,causes. It will be appreciated that illustrations herein using DMSOprecipitate (see, sic passim) are not limiting and that othermicrochannel blockages caused by other types of precipitate(s) are alsooptionally prevented/ameliorated by the invention.

Precipitation, whatever its cause, can lead to formation of precipitateblockages of the microfluidic elements of the system. Such blockages canbe especially problematic given the extremely small diameters of themicrofluidic elements involved. In other words, even small amounts ofprecipitate formation can lead to blockage of microfluidic elements andthus interfere with the assays, etc. being performed in the device.

The problem of possible precipitate blockage formation in microfluidicdevices can affect numerous embodiments of microfluidic devices. Forexample, one common situation wherein precipitate blockages may ariseinvolves biological molecules/compounds involved in assays, etc. whichare stored in buffers/solutions that can either precipitate out ofsolution under various conditions (e.g., dimethyl sulfoxide (DMSO), butalso including any other precipitatable solvent/buffer/etc.) and/orwhich can cause other molecules with which they come into contact withto precipitate out of solution. In order to present suchmolecules/compounds stored in such buffers/solutions in the properconcentration and/or to dilute the storage buffer/solution concentrationto levels which will not interfere with assays, etc., the sample isoften diluted (with, e.g., water, an appropriate buffer, etc.)Unfortunately, all-at-once dilution of such storage buffer/solutions canlead to precipitate formation (either of molecules in the storagebuffer/solution, the molecule/compound, and/or of other fluidicmaterials present in the microchannel), which, in turn, can lead toformation of precipitate blockages in the microfluidic elements.Additionally, another common possible cause of formation of precipitateblockages in microchannels, which can be ameliorated/prevented by thematerials and methods of the current invention arises from precipitationof protein due to, e.g., mixing of organic buffers with lipid proteinsin micellar buffer in order to break up micelles; mixing of low pHbuffers with some proteins; extremes in temperature, etc.

The present invention cleverly allows for preventing and/or amelioratingprecipitate blockages (no matter their origin or cause) in themicrofluidic elements while, e.g., mixing/diluting/transporting fluidicmaterials. In some embodiments of the present invention, thecross-sectional geometry of a region of a first microfluidic element(e.g., a microchannel) is enlarged (relative to other regions of thesame microfluidic element) at a location where a second microchannelintersects the first microchannel (see, e.g., FIG. 1 a). In otherembodiments of the present invention the configuration of numerousmicrochannels and the flow and concentration of fluidic materials withinsuch microchannels is configured so that a fluidic material in one ormore main microchannel is gradually diluted/mixed, thereby onlygradually producing any precipitate (or, alternatively, not producingany precipitate) so that no blockage is formed (see, e.g., FIG. 1 b). Inyet other embodiments of the invention, enlarged cross-sectional areasof microchannel are incorporated into the configuration of numerousintersecting microchannels used to gradually dilute/mix fluidicmaterials, at junctures where the microchannels meet/intersect/etc. Instill other embodiments of the invention, an AC electric current isapplied orthogonal to the direction of fluid flow at areas/regions whereprecipitate blockages may occur (see, e.g., FIGS. 4 and 5) to helpprevent precipitate from adhering to microchannel walls. In yet otherembodiments, an oscillatory pressure flow is optionally applied toaccomplish the same result as the AC current.

As used herein, some microchannel regions are described as “configured,”“specifically configured,” etc. Such channels can comprise a myriad ofchannel shapes depending upon the specific precipitate conditionsinvolved. For example, a non-limiting example of a specificallyconfigured microchannel is shown in FIG. 1 a. Again, depending upon thespecific parameters involved (e.g., the amount and/or type ofprecipitate present/produced, the fluidic materials involved, theconcentration of various solutes, the temperature of all components, theflow speed of the fluidic materials, etc.) the cross-sectional geometryof specifically configured microchannel regions varies in differentembodiments of the current invention and FIG. 1 a represents only one ofmany possible configurations. For example, as shown in FIG. 1 a,enlarged area, 104, can be of varying cross-sectional diameter, can beof varying length, and of varying wall slope/curvature (i.e., the areabetween, e.g., channel 102 and the full width of area 104 can be ofvarying degree). Such parameters are optionally modified depending upon,e.g., the amount and/or type of precipitate present/produced, etc.

As shown in FIG. 1 a, the enlarged area of the microchannel (e.g.,region 104) is located at a juncture of two microchannels (i.e., whereone microchannel crosses or empties into another microchannel) such as100 and 102. Formation of precipitate blockages at intersections ofmicrochannels which do not incorporate aspects of the current invention(e.g., specifically configured and/or arranged microchannel, use ACcurrent orthogonal to fluid flow, etc.), can arise for a number ofreasons, such as, changes in concentration of material, formation ofinsoluble product(s), accumulation of contaminants (e.g., from assayedbiological components such as blood, urine, etc.). However, in thecurrent invention, enlarged cross-sectional area 104prevents/ameliorates the formation of any precipitate blockage at theintersection of channels 100 and 102 by presenting a comparativelywider/larger cross-sectional area, thus allowing a greater area forfluidic materials to interact and thus producing/presenting a lessconcentrated precipitate formation or accumulation over a greater areaas well. Such enlarged area prevents any precipitate from being in alarge enough amount at any one point to block the microchannel and thusany precipitate accumulated and/or formed continues to flow through themicrochannel (e.g., into microchannel region 106).

In other embodiments of the current invention, formation of precipitateblockages is prevented/ameliorated by specific arrangements ofmicrochannels and specific arrangements of fluidic mixing. Sucharrangements of microchannels are, e.g., used to dilute a fluidicmaterial(s) capable of precipitation, in a specific fashion so as toform relatively small amounts of precipitate at one time. Theprecipitation can arise from, e.g., a material coming out of solution(e.g., DMSO) or from, e.g., the formation of an insoluble product, etc.(see, above). FIG. 1 b illustrates a specific arrangement ofmicrochannels (and, also, a specific arrangement of dilution/addition offluidic material) designed to prevent/ameliorate the formation ofprecipitate blockage of the microchannels. It is to be appreciated, ofcourse, that the arrangement shown in FIG. 1 b is non-limiting, and thatmyriad other channel/dilution arrangements (e.g., including differentarrangements of microchannels and different percentage mixtures ofsimilar and/or different fluidic materials) are included in the currentinvention depending upon the specific needs of the reactions/fluidicmaterials/etc. involved.

As a non-limiting illustration, and as shown in FIG. 1 b, a firstfluidic material (e.g., one comprising DMSO in this illustration, butalso including any other fluidic material capable of precipitatingand/or causing precipitation) is flowed through microchannel 112 (e.g.,by electrokinetic or other means) with a desired final concentration of,e.g., 1:100 DMSO. A second fluidic material (e.g., a diluent) is flowedinto channel 112 from microchannel 110. For example, the first fluidicmaterial is optionally a biological sample (e.g., an enzyme) in a DMSOsolution, while the second fluidic material is optionally, e.g., wateror a buffer specific for such an enzyme. Instead of doing an immediate1:100 dilution at the intersection of microchannels 112 and 110 whichwould produce all the possible precipitation at the point ofintersection and which could possible create a precipitate blockage, thecurrent invention cleverly dilutes the first fluidic material in steps,thus producing smaller amounts of precipitation in each individualdilution/mixing event. Such smaller amounts of precipitation are notlarge enough to block the microchannels (i.e., they are not large enoughby themselves to form a precipitate blockage).

To achieve the 1:100 dilution in the non-limiting illustration, thesecond fluidic material (i.e., the water, etc.) above is optionally usedto dilute the first fluidic material (i.e., the DMSO+enzyme) in a 1:1ratio at the confluence of 112 and 110 by flowing equal parts firstfluidic material and second fluidic material together. Thus a 1:1mixture is formed along with a certain quantity of precipitation, whichquantity of precipitate is not large enough or great enough to create aprecipitate blockage in channel 112 or in channel 110. Another aliquotof the second fluidic material (or, e.g., a third fluidic material) isflowed through microchannel 114 into channel 112, thus diluting theabove-created 1:1 mixture in channel 112 by an 8:2 ratio (i.e., 8 partssecond fluidic material (water) and 2 parts of the above-created 1:1mixture). Again, the amount of precipitate formed by such a dilution istoo small to create a precipitate blockage of either channel 112 or 114.As shown in FIG. 1 b, channel 118, is used as a shunt channel to drawoff an aliquot of fluidic material in channel 112, thus, reducing thetotal amount of fluidic material in the channel, but not changing theconcentration of the fluidic materials in the microchannels. In thepresent example to create a final 1:100 dilution of the first fluidicmaterial, 90% of the DMSO:water mixture in channel 112 is drawn offthrough channel 118, leaving behind the other 10% in channel 112. Thefinal dilution to reach a 1:100 dilution of the DMSO is done by flowingan aliquot of the second fluidic material, here water (or, e.g., a thirdor fourth fluidic material), from channel 116 into channel 112 in a 9:1ratio (i.e., 9 parts water to the remaining mixture in channel 112).Again, any precipitate produced by such a dilution/addition is too smallto create a precipitate blockage of channel 112 or 116.

The final mixture in the non-limiting illustration of fluidic materialsin channel 112 comprises a 1:100 dilution of the original first fluidicmaterial (DMSO+enzyme) without the formation of precipitate blockages inany of the microchannels involved. This is to be contrasted with a 1:100dilution done in one step (i.e., only one step involved in mixing theDMSO+enzyme with water) which could possibly form a precipitate blockageof the microchannel since all of the precipitate formed would be formedin one location (e.g., the intersection of 112 and 110). The arrangementof the various microchannels/dilutions in the above example can alsocomprise specific enlarged cross-sectional areas (e.g., as is shown inFIG. 1 a) at locations where the microchannels intersect (e.g., where112 intersects with 110).

The above example is non-limiting, and numerous other embodiments of thecurrent invention are optionally varied in, e.g., arrangement ofmicrochannels (e.g., staggered in order to keep any precipitate formedfrom building up in enough quantity to block the microchannel) andspecific dilutions of the fluidic materials in the microchannels (e.g.,the concentrations/aliquot amounts of the various fluidic materials areoptionally altered depending upon, e.g., the amount of precipitateformed by the specific buffer, etc. being utilized). Additionally, asstated previously, the above embodiments of the invention are notlimited by the type or source of precipitates involved (i.e., theembodiments are not limited to precipitation from DMSO solutions).

In other embodiment of the invention, precipitate blockages areprevented/ameliorated by application of an AC current orthogonal to thedirection of fluid flow in a microchannel. The application of such ACcurrent significantly reduces adherence of precipitate (e.g.,precipitated proteins) to walls of the microchannel. Again, as with theother embodiments described herein, the embodiment is applicable tobasically any type or source of precipitation which may act to formprecipitate blockages within a microchannel. Furthermore, the use of ACcurrent to reduce precipitate adherence to microchannel walls is readilyand optionally incorporated into other embodiments of the invention. Forexample the specific microchannel configurations and arrangementsdescribed above are optionally constructed so that an AC current isapplied orthogonal to the direction of fluidic flow. For example in FIG.4, an enzyme solution flowing through microchannel 402 was mixed with afluid flowing through microchannel 404, thus, forming a precipitate asis seen in FIG. 4, 408. It will be appreciated that, as in earlierdescriptions, microchannel 402 enlarges into area 406 to helpameliorate/prevent blockage of channel 402 by precipitated enzyme.However, precipitated enzyme is seen adhering to the walls ofmicrochannel region 406, 408.

FIG. 5 illustrates the same mixing of enzyme solution as is shown inFIG. 4, but with an AC electric field applied through cross channel 504(field is 5 Hz, 2800 v). As is shown in FIG. 5, the applied fieldsignificantly reduces adhesion of the precipitated enzyme to the wallsof microchannel region 506.

Embodiments of the current invention which incorporate use of an ACfield to reduce precipitate adherence can be applied/combined with anyof the other embodiments described herein; are optionally used withnumerous types of microfluidic chips as described in the referencescited herein; and are applicable to microfluidic chips comprised of,e.g., glass, quartz, plastic, silicon, ceramic, etc. The precipitatewhich is prevented from adhering to the microchannel walls can beorganic and/or inorganic and the fluid flow in the microchannel isoptionally aqueous and/or organic.

Finally, in some embodiments, an oscillatory pressure flow is optionallyemployed to reduce precipitate adhesion to the walls of themicrochannels.

The above examples illustrate that the methods and devices of thecurrent invention are easily adaptable to many different experimentalsituations and, as stated previously, the elements (i.e., methods anddevices) of the current invention can be incorporated into numerousmicrofluidic devices which perform any number of different assays,tasks, etc. Whenever a possibility of precipitate blockages occurs, theelements of the current invention can be combined and interlaced withthe designs of other microfluidic chips and devices to help achieveproper (or more efficient) flow (i.e., by preventing/amelioratingprecipitate blockages).

The various types of microfluidic devices, etc. that benefit from suchsystems and methods as are found within the present invention (i.e.,ones into which the present methods/devices are optionally readilyincorporated) are described in numerous publications by the inventorsand their coworkers, all of which are incorporated herein by referencein their entirety for all purposes. These include certain issued U.S.patents, including U.S. Pat. No. 5,699,157 (J. Wallace Parce) issuedDec. 16, 1997, U.S. Pat. No. 5,779,868 (J. Wallace Parce et al.) issuedJul. 14, 1998, U.S. Pat. No. 5,800,690 (Calvin Y. H. Chow et al.) issuedSep. 1, 1998, U.S. Pat. No. 5,842,787 (Anne R. Kopf-Sill et al.) issuedDec. 1, 1998, U.S. Pat. No. 5,852,495 (J. Wallace Parce) issued Dec. 22,1998, U.S. Pat. No. 5,869,004 (J. Wallace Parce et al.) issued Feb. 9,1999, U.S. Pat. No. 5,876,675 (Colin B. Kennedy) issued Mar. 2, 1999,U.S. Pat. No. 5,880,071 (J. Wallace Parce et al.) issued Mar. 9, 1999,U.S. Pat. No. 5,882,465 (Richard J. McReynolds) issued Mar. 16, 1999,U.S. Pat. No. 5,885,470 (J. Wallace Parce et al.) issued Mar. 23, 1999,U.S. Pat. No. 5,942,443 (J. Wallace Parce et al.) issued Aug. 24, 1999,U.S. Pat. No. 5,948,227 (Robert S. Dubrow) issued Sep. 7, 1999, U.S.Pat. No. 5,955,028 (Calvin Y. H. Chow) issued Sep. 21, 1999, U.S. Pat.No. 5,957,579 (Anne R. Kopf-Sill et al.) issued Sep. 28, 1999, U.S. Pat.No. 5,958,203 (J. Wallace Parce et al.) issued Sep. 28, 1999, U.S. Pat.No. 5,958,694 (Theo T. Nikiforov) issued Sep. 28, 1999, U.S. Pat. No.5,959,291 (Morten J. Jensen) issued Sep. 28, 1999, U.S. Pat. No.5,964,995 (Theo T. Nikiforov et al.) issued Oct. 12, 1999, U.S. Pat. No.5,965,001 (Calvin Y. H. Chow et al.) issued Oct. 12, 1999, U.S. Pat. No.5,965,410 (Calvin Y. H. Chow et al.) issued Oct. 12, 1999, U.S. Pat. No.5,972,187 (J. Wallace Parce et al.) issued Oct. 26, 1999, U.S. Pat. No.5,976,336 (Robert S. Dubrow et al.) issued Nov. 2, 1999, U.S. Pat. No.5,989,402 (Calvin Y. H. Chow et al.) issued Nov. 23, 1999, U.S. Pat. No.6,001,231 (Anne R. Kopf-Sill) issued Dec. 14, 1999, U.S. Pat. No.6,011,252 (Morten J. Jensen) issued Jan. 4, 2000, U.S. Pat. No.6,012,902 (J. Wallace Parce) issued Jan. 11, 2000, U.S. Pat. No.6,042,709 (J. Wallace Parce et al.) issued Mar. 28, 2000, U.S. Pat. No.6,042,710 (Robert S. Dubrow) issued Mar. 28, 2000, U.S. Pat. No.6,046,056 (J. Wallace Parce et al.) issued Apr. 4, 2000, U.S. Pat. No.6,048,498 (Colin B. Kennedy) issued Apr. 11, 2000, U.S. Pat. No.6,068,752 (Robert S. Dubrow et al.) issued May 30, 2000, U.S. Pat. No.6,071,478 (Calvin Y. H. Chow) issued Jun. 6, 2000, U.S. Pat. No.6,074,725 (Colin B. Kennedy) issued Jun. 13, 2000, U.S. Pat. No.6,080,295 (J. Wallace Parce et al.) issued Jun. 27, 2000, U.S. Pat. No.6,086,740 (Colin B. Kennedy) issued Jul. 11, 2000, U.S. Pat. No.6,086,825 (Steven A. Sundberg et al.) issued Jul. 11, 2000, U.S. Pat.No. 6,090,251 (Steven A. Sundberg et al.) issued Jul. 18, 2000, U.S.Pat. No. 6,100,541 (Robert Nagle et al.) issued Aug. 8, 2000, U.S. Pat.No. 6,107,044 (Theo T. Nikiforov) issued Aug. 22, 2000, U.S. Pat. No.6,123,798 (Khushroo Gandhi et al.) issued Sep. 26, 2000, U.S. Pat. No.6,129,826 (Theo T. Nikiforov et al.) issued Oct. 10, 2000, U.S. Pat. No.6,132,685 (Joseph E. Kersco et al.) issued Oct. 17, 2000, U.S. Pat. No.6,148,508 (Jeffrey A. Wolk) issued Nov. 21, 2000, U.S. Pat. No.6,149,787 (Andrea W. Chow et al.) issued Nov. 21, 2000, U.S. Pat. No.6,149,870 (J. Wallace Parce et al.) issued Nov. 21, 2000, U.S. Pat. No.6,150,119 (Anne R. Kopf-Sill et al.) issued Nov. 21, 2000, U.S. Pat. No.6,150,180 (J. Wallace Parce et al.) issued Nov. 21, 2000, U.S. Pat. No.6,153,073 (Robert S. Dubrow et al.) issued Nov. 28, 2000, U.S. Pat. No.6,156,181 (J. Wallace Parce et al.) issued Dec. 5, 2000, U.S. Pat. No.6,167,910 (Calvin Y. H. Chow) issued Jan. 2, 2001, U.S. Pat. No.6,171,067 (J. Wallace Parce) issued Jan. 9, 2001, U.S. Pat. No.6,171,850 (Robert Nagle et al.) issued Jan. 9, 2001, U.S. Pat. No.6,172,353 (Morten J. Jensen) issued Jan. 9, 2001, U.S. Pat. No.6,174,675 (Calvin Y. H. Chow et al.) issued Jan. 16, 2001, U.S. Pat. No.6,182,733 (Richard J. McReynolds) issued Feb. 6, 2001, U.S. Pat. No.6,186,660 (Anne R. Kopf-Sill et al.) issued Feb. 13, 2001, U.S. Pat. No.6,221,226 (Anne R. Kopf-Sill) issued Apr. 24, 2001, U.S. Pat. No.6,233,048 (J. Wallace Parce) issued May 15, 2001, U.S. Pat. No.6,235,175 (Robert S. Dubrow et al.) issued May 22, 2001, U.S. Pat. No.6,235,471 (Michael Knapp et al.) issued May 22, 2001, and U.S. Pat. No.6,238,538 (J. Wallace Parce et al.) issued May 29, 2001.

These systems are also described in various PCT applications by theinventors including, e.g., WO 98/00231, WO 98/00705, WO 98/00707, WO98/02728, WO 98/05424, WO 98/22811, WO 98/45481, WO 98/45929, WO98/46438, and WO 98/49548, WO 98/55852, WO 98/56505, WO 98/56956, WO99/00649, WO 99/10735, WO 99/12016, WO 99/16162, WO 99/19056, WO99/19516, WO 99/29497, WO 99/31495, WO 99/34205, WO 99/43432, WO99/44217, WO 99/56954, WO 99/64836, WO 99/64840, WO 99/64848, WO99/67639, WO 00/07026, WO 00/09753, WO 00/10015, WO 00/21666, WO00/22424, WO 00/26657, WO 00/42212, WO 00/43766, WO 00/45172, WO00/46594, WO 00/50172, WO 00/50642, WO 00/58719, WO 00/60108, WO00/70080, WO 00/70353, WO 00/72016, WO 00/73799, WO 00/78454, WO01/02850, WO 01/14865, WO 01/17797, and WO 01/27253.

II. Integrated Systems, Methods and Microfluidic Devices of theInvention

The microfluidic devices of the invention include numerous optionalembodiments including variant methods and devices for, e.g., fluidtransport, temperature control, detection and the like.

As used herein, the term “microfluidic device” refers to a system ordevice having fluidic conduits or chambers that are generally fabricatedat the micron to sub-micron scale, e.g., typically having at least onecross-sectional dimension in the range of from about 0.1 micrometer toabout 500 micrometer. Dimensions of such minuteness emphasize the needfor devices/methods, such as the current invention, to prevent and/orreduce precipitate blockage of microscale elements whether such is from,e.g., DMSO precipitate caused by dilution of a DMSO containing solution,by precipitation of molecules due to changes in temperature from anyother cause of precipitation described herein, or from any source ofprecipitate, etc.

The microfluidic system of the current invention is fabricated frommaterials that are compatible with the conditions present in thespecific experiments, etc. to be performed on the specific samples,reagents, etc. under examination, etc. Such conditions include, but arenot limited to, pH, temperature, ionic concentration, pressure, andapplication of electrical fields. The materials of the device are alsochosen for their inertness to components of the experiments to becarried out in the device, e.g., those experiments or assays in additionto the prevention/amelioration of precipitate blockages. Such materialsinclude, but are not limited to, glass, quartz, silicon, and polymericsubstrates, e.g., plastics, depending on the intended application.

Although the devices and systems specifically illustrated herein aregenerally described in terms of the performance of a few operations, orof one particular operation, it will be readily appreciated from thisdisclosure that the flexibility of these systems permits easyintegration of the methods/devices of the invention into many differentoperations and of many additional operations into these current devices.For example, the devices and systems described will optionally includestructures, reagents and systems for performing virtually any number ofoperations both upstream and downstream (as well as at the samelocation) from the operations specifically described herein (e.g.,upstream and/or downstream of such preventions of precipitate blockages,etc. as described herein). Such upstream operations include, forexample, sample handling and preparation, e.g., extraction,purification, amplification, cellular activation, labeling reactions,dilution, aliquotting, and the like. Similarly, downstream operationsoptionally include similar operations, including, e.g., furtherseparation of sample components, labeling of components, assays anddetection operations, electrokinetic or pressure-based injection ofcomponents or the like.

The microfluidic devices of the present invention can include featuresof microscale systems, such as fluid transport systems which directparticle/fluid movement within and to the microfluidic devices as wellas the flow of fluids to and through various channels, dilution regions,etc. Various combinations of fluid flow mechanisms can be utilized inembodiments of the present invention. Additionally, various types offluid flow mechanisms can be utilized in separate areas of microfluidicdevices of the invention. For example, separation of fluidic materialscan be carried out in some microchannels by utilizing non-electrokineticfluid flow. While in other areas of the same microfluidic deviceelectrokinetic fluid flow is optionally used. Flow of fluidic componentssuch as reagents, etc., can incorporate any movement mechanism set forthherein (e.g., fluid pressure sources for modulating fluid pressure inmicrochannels/microreservoirs/etc.; electrokinetic controllers formodulating voltage or current in microchannels/microreservoirs/etc.;gravity flow modulators; magnetic control elements for modulating amagnetic field within the microfluidic device; use of hydrostatic,capillary, or wicking forces; or combinations thereof).

The microfluidic devices of the invention can also include fluidmanipulation elements such as parallel stream fluidic converters, i.e.,converters which facilitate conversion of at least one serial stream ofreagents into parallel streams of reagents for parallel delivery to areaction site or reaction sites within the device. The systems hereinoptionally include mechanisms such as valve manifolds and a plurality ofsolenoid valves to control flow switching, e.g., between channels and/orto control pressure/vacuum levels in the, e.g., microchannels.Additionally, molecules, reagents, etc. are optionally loaded into oneor more channels of a microfluidic device through one sipper capillaryfluidly coupled to each of one or more channels and to a sample orparticle source, such as a microwell plate.

In the present invention, materials such as cells, proteins, antibodies,enzymes, substrates, buffers, precipitates (e.g., DMSO precipitate orany other type/kind of precipitate) or the like are optionally monitoredand/or detected, e.g., so that the presence of a precipitate blockagecan be detected, levels of any precipitate formed can be monitored, thepresence of a component of interest can be detected, an activity of acompound can be determined, separation of fluidic materials can bemonitored, or an effect of a modulator, e.g., on an enzyme's activity,can be measured. Depending upon the detected signal measurements,decisions are optionally made regarding subsequent fluidic operations,e.g., whether to change/modify dilution speeds and/or ratios to minimizefurther precipitate formation in an area, whether to assay a particularcomponent in detail to determine, e.g., kinetic information or, e.g.,whether, when, or to what extent to shunt a portion of a fluidicmaterial from a main channel into a second channel (e.g., flowing afluidic material into a second channel) once it has been separated froma mixture of fluidic materials.

In brief, the systems described herein optionally include microfluidicdevices, as described above, in conjunction with additionalinstrumentation for controlling fluid transport, flow rate and directionwithin the devices, detection instrumentation for detecting or sensingresults of the operations performed by the system and/orpresence/absence/degree of precipitate blockage, processors, e.g.,computers, for instructing the controlling instrumentation in accordancewith preprogrammed instructions, receiving data from the detectioninstrumentation, and for analyzing, storing and interpreting the data,and providing the data and interpretations in a readily accessiblereporting format. For example, the systems herein optionally include avalve manifold and a plurality of solenoid valves to control flowswitching between channels and/or to control pressure/vacuum levels inthe channels.

A. Temperature Control

Various embodiments of the present invention can control temperatures toinfluence numerous parameters or reaction conditions, e.g., those inthermocycling reactions (e.g., PCR, LCR). Additionally, the presentinvention can control temperatures in order to manipulate reagentproperties, etc. (for example, buffers, etc. are optionally heated tohelp prevent or reduce precipitate formation in the microscale elementsof the current devices). However, in some assays/etc. necessary and/orunavoidable changes in temperature can lead to precipitate formation andthus to precipitate blockages. In general, and in optional embodimentsof the invention, various heating methods can be used to provide acontrolled temperature in the involved miniaturized fluidic systems.Such heating methods include both joule and non-joule heating.

Non-joule heating methods can be internal, i.e., integrated into thestructure of the microfluidic device, or external, i.e., separate fromthe microfluidic device. Non-joule heat sources can include, e.g.,photon beams, fluid jets, liquid jets, lasers, electromagnetic fields,gas jets, electron beams, thermoelectric heaters, water baths, furnaces,resistive thin films, resistive heating coils, peltier heaters, or othermaterials, which provide heat to the fluidic system in a conductivemanner. Such conductive heating elements transfer thermal energy from,e.g., a resistive element in the heating element to the microfluidicsystem by way of conduction. Thermal energy provided to the microfluidicsystem overall, increases the temperature of the microfluidic system toa desired temperature. Accordingly, the fluid temperature and thetemperature of the molecules and/or precipitates within, e.g., themicrochannels of the system, are also increased in temperature. Aninternal controller in the heating element or within the microfluidicdevice optionally can be used to regulate the temperature involved.These examples are not limiting and numerous other energy sources can beutilized to raise the fluid temperature in the microfluidic device.

Non-joule heating units can attach directly to an external portion of achip of the microfluidic device. Alternatively, non-joule heating unitscan be integrated into the structure of the microfluidic device. Ineither case, the non-joule heating is optionally applied to onlyselected portions of chips in microfluidic devices (e.g., such asreaction areas, dilution areas, detection areas, junctions/intersectionsof microchannels or any area where precipitate may form and/oraccumulate, etc.) or optionally heats the entire chip of themicrofluidic device and provides a uniform temperature distributionthroughout the chip

A variety of methods can be used to lower fluid temperature in themicrofluidic system, through use of energy sinks. Such an energy sinkcan be a thermal sink or a chemical sink and can be flood, time-varying,spatially varying, or continuous. A thermal sink can include, amongothers, a fluid jet, a liquid jet, a gas jet, a cryogenic fluid, asuper-cooled liquid, or a thermoelectric cooling means, e.g., peltierdevice.

In general, electric current passing through the fluid in a channelproduces heat by dissipating energy through the electrical resistance ofthe fluid. Power dissipates as the current passes through the fluid andgoes into the fluid as energy as a function of time to heat the fluid.The following mathematical expression generally describes a relationshipbetween power, electrical current, and fluid resistance: wherePOWER=power dissipated in fluid: I=electric current passing throughfluid; and R=electric resistance of fluid.POWER=I ² R

The above equation provides a relationship between power dissipated(“POWER”) to current (“I”) and resistance (“R”). In some of theembodiments of the invention, wherein electric current is directedtoward moving a fluid, a portion of the power goes into kinetic energyof moving the fluid through the channel. Joule heating uses a selectedportion of the power to heat the fluid in the channel or a selectedchannel region(s) of the microfluidic device and can utilize in-channelelectrodes. See, e.g., U.S. Pat. No. 5,965,410, which is incorporatedherein by reference in its entirety for all purposes. Such a channelregion is often narrower or smaller in cross section than other channelregions in the channel structure. The small cross section provideshigher resistance in the fluid, which increases the temperature of thefluid as electric current passes therethrough. Alternatively, theelectric current can be increased along the length of the channel byincreased voltage, which also increases the amount of power dissipatedinto the fluid to correspondingly increase fluid temperature.

Joule heating permits the precise regional control of temperature and/orheating within separate microfluidic elements of the device of theinvention, e.g., within one or several separate channels or within areaswhere precipitate may form and/or accumulate, without heating otherregions where such heating is, e.g., unnecessary or undesirable. Becausethe microfluidic elements involved are extremely small in comparison tothe mass of the entire microfluidic device in which they are fabricated,such heat remains substantially localized, e.g., it dissipates into andfrom the device before it affects other fluidic elements. In otherwords, the relatively massive device functions as a heat sink for theseparate fluidic elements contained therein.

To selectively control the temperature of fluid or material of a regionof, e.g., a microchannel, the joule heating power supply of theinvention can apply voltage and/or current in several optional ways. Forinstance, the power supply optionally applies direct current (i.e., DC),which passes through one region of a microchannel and into anotherregion of the same microchannel which is smaller in cross section inorder to heat fluid and material in the second region. This directcurrent can be selectively adjusted in magnitude to complement anyvoltage or electric field applied between the regions to move materialsin and out of the respective regions. In order to heat the materialwithin a region, without adversely affecting the movement of a material,alternating current (i.e., AC) can be selectively applied by a powersupply. The AC used to heat the fluid can be selectively adjusted tocomplement any voltage or electric field applied between regions inorder to move fluid into and out of various regions of the device.Alternating current, voltage, and/or frequency can be adjusted, forexample, to heat a fluid without substantially moving the fluid.Alternatively, the power supply can apply a pulse or impulse of currentand/or voltage, which will pass through one microchannel region and intoanother microchannel region to heat the fluid in the region at a giveninstance in time. This pulse can be selectively adjusted to complementany voltage or electric field applied between the regions in order tomove materials, e.g., fluids or other materials, into and out of thevarious regions. Pulse width, shape, and/or intensity can be adjusted,for example, to heat a fluid substantially without moving the fluid orany materials within the fluid, or to heat the material(s) while movingthe fluid or materials. Still further, the power supply optionallyapplies any combination of DC, AC, and pulse, depending upon theapplication. The microchannel(s) itself optionally has a desired crosssection (e.g., diameter, width or depth) that enhances the heatingeffects of the current passed through it and the thermal transfer ofenergy from the current to the fluid (e.g., in addition to, oralternative to, any cross-sectional geometry used tomanipulate/influence precipitate formation/blockage etc.). Additionally,as described above, AC current is optionally used in one or more area ofthe current invention to help prevent/ameliorate adhesion of precipitateto microchannel walls. This is in addition to, or alternative to, anyother use of AC power in the invention.

Because electrical energy is optionally used to control temperaturedirectly within the fluids contained in the microfluidic devices, themethods and devices of the invention are optionally utilized inmicrofluidic systems which employ electrokinetic material transportsystems, as noted herein. Specifically, the same electrical controllers,power supplies and electrodes can be readily used to control temperaturecontemporaneously with their control of material transport. See, infra.In some embodiments of the invention, the device provides multipletemperature zones by use of zone heating. On such example apparatus isdescribed in Kopp, M. et al. (1998) “Chemical amplification:continuous-flow PCR on a chip” Science 280(5366):1046–1048.

As can be seen from the above, the elements of the current invention canbe configured in many different arrangements depending upon the specificneeds of the molecules, etc. under consideration and the parameters ofthe specific assays/reactions involved. Again, the above non-limitingillustrations are only examples of the many differentconfigurations/embodiments of the invention.

B. Fluid Flow

A variety of controlling instrumentation and methodology is optionallyutilized in conjunction with the microfluidic devices described herein,for controlling the transport and direction of fluidic materials and/ormaterials within the devices of the present invention by, e.g.,pressure-based or electrokinetic control, etc.

In the present system, the fluid direction system controls thetransport, flow and/or movement of samples, other reagents, etc. intoand through the microfluidic device. For example, the fluid directionsystem optionally directs the movement of one or more fluid (e.g.,samples suspended in a DMSO solution) etc. into, e.g., a microchannelwhere such fluidic materials, e.g., are to be separated or are to bekept together in a “plug.” The fluid direction system also optionallydirects the simultaneous or sequential movement of fluidic materialsinto one or more channels, etc. for example, the fluid direction systemoptionally directs specific amounts of fluidic materials to flow into,e.g., a main channel in such a way as to never produce so muchprecipitate that it would block the microchannel. Additionally, thefluid direction system can optionally direct the shunting of portions offluidic materials into shunt microchannels and the like.

The fluid direction system also optionally iteratively repeats the fluiddirection movements to create high throughput screening, e.g., ofthousands of samples. Alternatively, the fluid direction systemoptionally repeats the fluid direction movements to a lesser degree ofiterations to create a lower throughput screening (applied, e.g., whenthe specific analysis under observation requires, e.g., a longincubation time when a higher throughput format would becounter-productive) or the fluid direction system utilizes a format ofhigh throughput and low throughput screening depending on the specificrequirements of the assay. Additionally, the devices of the inventionoptionally use a multiplex format to help achieve high throughputscreening, e.g., through use of a series of multiplexed sipper devicesor multiplexed system of channels coupled to a single controller forscreening in order to increase the amount of samples analyzed in a givenperiod of time. Again, the fluid direction system of the inventionoptionally controls the flow (timing, rate, etc.) of samples, reagents,buffers, etc. involved in the various optional multiplex embodiments ofthe invention.

One method of achieving transport or movement of particles throughmicrofluidic devices is by electrokinetic material transport. Ingeneral, electrokinetic material transport and direction systems includethose systems that rely upon the electrophoretic mobility of chargedspecies within an electric field applied to the structure. Such systemsare more particularly referred to as electrophoretic material transportsystems. In the current invention, electrokinetic transport isoptionally used as the method of fluid transport when fluidic materialsare, e.g., diluted in the various microchannels and methods of thecurrent invention. However, as explained below, fluid transport methodscan also comprise, e.g., pressure based flow, wicking based flow,hydrostatic based flow, etc. See, below.

Electrokinetic material transport systems, as used herein, and asoptional aspects of the present invention, include systems thattransport and direct materials within a structure containing, e.g.,microchannels, microreservoirs, etc., through the application ofelectrical fields to the materials, thereby causing material movementthrough and among the areas of the microfluidic devices. e.g., cationswill move toward a negative electrode, while anions will move toward apositive electrode. For example, such direction systems optionally,e.g., move specific amounts of fluidic materials into the specificallyconfigured and/or arranged microchannels of the invention in a manner soas not to produce or to ameliorate precipitate blockage. Movement offluids toward or away from a cathode or anode can cause movement ofparticles suspended within the fluid (or even particles over which thefluid flows). Similarly, the particles can be charged, in which casethey will move toward an oppositely charged electrode (indeed, it ispossible to achieve fluid flow in one direction while achieving particleflow in the opposite direction). In some embodiments of the presentinvention, the fluid and/or particles, etc. within the fluid, can beimmobile or flowing.

For optional electrophoretic applications of the present invention, thewalls of interior channels of the electrokinetic transport system areoptionally charged or uncharged. Typical electrokinetic transportsystems are made of glass, charged polymers, and uncharged polymers. Theinterior channels are optionally coated with a material which alters thesurface charge of the channel. A variety of electrokinetic controllersare described, e.g., in U.S. Pat. Nos. 5,885,470, 5,976,336, 6,001,229,6,010,607, and 6,235,175 (all of which are incorporated herein byreference in their entirety for all purposes), as well as in a varietyof other references noted herein.

To provide appropriate electric fields, the system of the currentmicrofluidic device optionally includes a voltage controller that iscapable of applying selectable voltage levels, simultaneously, to, e.g.,each of the various microchannels, microreservoirs, etc. Such a voltagecontroller is optionally implemented using multiple voltage dividers andmultiple relays to obtain the selectable voltage levels. Alternatively,multiple independent voltage sources are used. The voltage controller iselectrically connected to each of the device's fluid conduits via anelectrode positioned or fabricated within each of the plurality of fluidconduits (e.g., microchannels, microreservoirs, etc.). In oneembodiment, multiple electrodes are positioned to provide for switchingof the electric field direction in the, e.g., microchannel(s), therebycausing the analytes to travel a longer distance than the physicallength of the microchannel. Use of electrokinetic transport to controlmaterial movement in interconnected channel structures was described in,e.g., U.S. Pat. Nos. 6,001,229 and 6,010,607. An exemplary controller isdescribed in U.S. Pat. No. 5,800,690. Modulating voltages areconcomitantly applied to the various fluid areas of the device to affecta desired fluid flow characteristic, e.g., continuous or discontinuous(e.g., a regularly pulsed field causing the sample to oscillate itsdirection of travel) flow of labeled components toward a wastereservoir. Particularly, modulation of the voltages applied at thevarious areas can move and direct fluid flow through the interconnectedchannel structure of the device.

The controlling instrumentation discussed above is also optionally usedto provide for electrokinetic injection or withdrawal of fluidicmaterial downstream of a region of interest to control an upstream flowrate. The same instrumentation and techniques described above are alsoutilized to inject a fluid into a downstream port to function as a flowcontrol element.

The current invention also optionally includes other methods of fluidtransport, e.g., available for situations in which electrokineticmethods are not desirable. See, above. For example, fluid transport anddirection, etc. are optionally carried out in whole, or in part, in apressure-based system to, e.g., avoid electrokinetic biasing duringsample mixing. High throughput systems typically use pressure inducedsample introduction. Pressure based flow is also desirable in systems inwhich electrokinetic transport is also used. For example, pressure basedflow is optionally used for introducing and reacting reagents in asystem in which the products are electrophoretically separated. In thepresent invention molecules are optionally loaded and other reagents areflowed through the microchannels, microreservoirs, etc. using, e.g.,electrokinetic fluid control and/or under pressure.

Pressure is optionally applied to the microscale elements of theinvention, e.g., to a microchannel, microreservoir, region, etc. toachieve fluid movement using any of a variety of techniques. Fluid flowand flow of materials suspended or solubilized within the fluid,including cells or molecules, precipitates, etc., is optionallyregulated by pressure based mechanisms such as those based upon fluiddisplacement, e.g., using a piston, pressure diaphragm, vacuum pump,probe or the like to displace liquid and raise or lower the pressure ata site in the microfluidic system. The pressure is optionally pneumatic,e.g., a pressurized gas, or uses hydraulic forces, e.g., pressurizedliquid, or alternatively, uses a positive displacement mechanism, e.g.,a plunger fitted into a material reservoir, for forcing material througha channel or other conduit, or is a combination of such forces. Internalsources include microfabricated pumps, e.g., diaphragm pumps, thermalpumps, lamb wave pumps and the like that have been described in the art.See, e.g., U.S. Pat. Nos. 5,271,724; 5,277,566; and 5,375,979 andPublished PCT Application Nos. WO 94/05414 and WO 97/02347.

In some embodiments, a pressure source is applied to a reservoir or wellat one end of a microchannel to force a fluidic material through thechannel. Optionally, the pressure can be applied to multiple ports atchannel termini, or, a single pressure source can be used at a mainchannel terminus. Optionally, the pressure source is a vacuum sourceapplied at the downstream terminus of the main channel or at the terminiof multiple channels. Pressure or vacuum sources are optionally suppliedexternally to the device or system, e.g., external vacuum or pressurepumps sealably fitted to the inlet or outlet of channels or to thesurface openings of microreservoirs, or they are internal to the device,e.g., microfabricated pumps integrated into the device and operablylinked to channels or they are both external and internal to the device.Examples of microfabricated pumps have been widely described in the art.See, e.g., published International Application No. WO 97/02357.

These applied pressures, or vacuums, generate pressure differentialsacross the lengths of channels to drive fluid flow through suchchannels. In the interconnected channel networks described herein,differential flow rates on volumes are optionally accomplished byapplying different pressures or vacuums at multiple ports, or, byapplying a single vacuum at a common waste port and configuring thevarious channels with appropriate resistance to yield desired flowrates, e.g., in the various microchannels of, e.g., specificallyarranged microchannels so as to, e.g., dilute a fluidic material withoutproducing a precipitate blockage. As discussed above, this is optionallydone with multiple sources or by connecting a single source to a valvemanifold comprising multiple electronically controlled valves, e.g.,solenoid valves.

Hydrostatic, wicking and capillary forces are also optionally used toprovide fluid flow of materials such as reagents, buffers, etc. in theinvention. See, e.g., U.S. Pat. No. 6,416,642. In usingwicking/capillary methods, an adsorbent material or branched capillarystructure is placed in fluidic contact with a region where pressure isapplied, thereby causing fluid to move towards the adsorbent material orbranched capillary structure. Furthermore, the capillary forces areoptionally used in conjunction with, e.g., electrokinetic orpressure-based flow in the channels, etc. of the present invention inorder to pull fluidic material, etc. through the channels. Additionally,a wick is optionally added to draw fluid through a porous matrix fixedin a microscale channel or capillary. Use of a hydrostatic pressuredifferential is another optional way to control flow rates through thechannels, etc. of the present invention. For example, in a simplepassive aspect, a cell suspension is deposited in a reservoir or well atone end of a channel at sufficient volume or depth so that the cellsuspension creates a hydrostatic pressure differential along the lengthof the channel by virtue of, e.g., the cell suspension reservoir havinggreater depth than a well at an opposite terminus of the channel.Typically, the reservoir volume is quite large in comparison to thevolume or flow-through rate of the channel, e.g., 10 microliterreservoirs or larger as compared to a 100 micrometer channel crosssection.

The present invention optionally includes mechanisms for reducingadsorption of materials during fluid-based flow, e.g., as are describedin U.S. Pat. No. 6,458,259. In brief, adsorption of components,proteins, enzymes, markers and other materials to channel walls or othermicroscale components during pressure-based flow can be reduced byapplying an electric field such as an alternating current to thematerial during flow. Alternatively, flow rate changes due to adsorptionare detected and the flow rate is adjusted by a change in pressure orvoltage.

The invention also optionally includes mechanisms for focusing labelingreagents, enzymes, modulators, and other components into the center ofmicroscale flow paths, which is useful in increasing assay throughput byregularizing flow velocity, e.g., in pressure based flow, e.g., as aredescribed in International Patent Application Publication WO 00/70080.In brief, sample materials are focused into the center of a channel byforcing fluid flow from opposing side channels into the main channel, orby other fluid manipulation.

In an alternate embodiment, microfluidic systems of the invention can beincorporated into centrifuge rotor devices, which are spun in acentrifuge. Fluids and particles travel through the device due togravitational and centripetal/centrifugal pressure forces.

Fluid flow or particle flow in the present devices and methods isoptionally achieved using any one or more of the above techniques, aloneor in combination. For example, electrokinetic transport can be used inone area or region of a microfluidic device in order to, e.g., movematerial through a microchannel specifically configured and/or arrangedto reduce blockage of the microchannel due to precipitate formation.Additionally, pressure based flow could be used in a different (or thesame) region/area of the same microfluidic device where various fluidicmaterials (again, e.g., cells and enzymes or the like) are to bediluted. Myriad combinations of fluid transport methods can be combinedin various embodiments of the present invention depending upon thespecific needs of the system/assay being used. Typically, the controllersystems involved are appropriately configured to receive or interfacewith a microfluidic device or system element as described herein. Forexample, the controller, optionally includes a stage upon which thedevice of the invention is mounted to facilitate appropriate interfacingbetween the controller and the device. Typically, the stage includes anappropriate mounting/alignment structural element, such as a nestingwell, alignment pins and/or holes, asymmetric edge structures (tofacilitate proper device alignment), and the like. Many suchconfigurations are described in the references cited herein.

C. Detection

In general, detection systems in microfluidic devices include, e.g.,optical sensors, temperature sensors, pressure sensors, pH sensors,conductivity sensors, and the like. Each of these types of sensors isreadily incorporated into the microfluidic systems described herein. Inthese systems, such detectors are placed either within or adjacent tothe microfluidic device or one or more microchannels, microchambers,microreservoirs or conduits of the device, such that the detector iswithin sensory communication with the device, channel, reservoir, orchamber, etc. Detection systems can be used to, e.g., discern and/ormonitor specific reactions, assays, etc. occurring within themicrofluidic device, or alternatively, and/or additionally, to track,e.g., precipitate formation and/or microchannel blockage by precipitate.The phrase “proximal,” to a particular element or region, as usedherein, generally refers to the placement of the detector in a positionsuch that the detector is capable of detecting the property of themicrofluidic device, a portion of the microfluidic device, or thecontents of a portion of the microfluidic device, for which thatdetector was intended. For example, a pH sensor placed in sensorycommunication with a microscale channel is capable of determining the pHof a fluid disposed in that channel. Similarly, a temperature sensorplaced in sensory communication with the body of a microfluidic deviceis capable of determining the temperature of the device itself.

Many different molecular/reaction characteristics can be detected inmicrofluidic devices of the current invention. For example, variousembodiments can detect such things as fluorescence or emitted light,changes in the thermal parameters (e.g., heat capacity, etc.) involvedin assays, etc. For example, spectroscopy (as well as other detectionmethods, e.g., those discussed herein) can be used to detect smooth flow(i.e., the absence of precipitate blockages) in microchannels, etc.

Examples of detection systems in the current invention can include,e.g., optical detection systems for detecting an optical property of amaterial within, e.g., the microchannels of the microfluidic devicesthat are incorporated into the microfluidic systems described herein.Such optical detection systems are typically placed adjacent to amicroscale channel of a microfluidic device, and optionally are insensory communication with the channel via an optical detection windowor zone that is disposed across the channel or chamber of the device.

Optical detection systems of the invention include, e.g., systems thatare capable of measuring the light emitted from material within thechannel, the transmissivity or absorbance of the material, as well asthe material's spectral characteristics, e.g., fluorescence,chemiluminescence, etc. Detectors optionally detect a labeled compound,such as fluorographic, colorimetric and radioactive components. Types ofdetectors optionally include spectrophotometers, photodiodes, avalanchephotodiodes, microscopes, scintillation counters, cameras, diode arrays,imaging systems, photomultiplier tubes, CCD arrays, scanning detectors,galvo-scanners, film and the like, as well as combinations thereof.Proteins, antibodies, or other components which emit a detectable signalcan be flowed past the detector, or alternatively, the detector can moverelative to an array to determine molecule position (or, the detectorcan simultaneously monitor a number of spatial positions correspondingto channel regions, e.g., specific intersections, etc. where precipitateblockages would possibly form or as in a CCD array). Examples ofsuitable detectors are widely available from a variety of commercialsources known to persons of skill. See, also, The Photonics Design andApplication Handbook, books 1, 2, 3 and 4, published annually by LaurinPublishing Co., Berkshire Common, P.O. Box 1146, Pittsfield, Mass. forcommon sources for optical components.

As noted above, the present devices optionally include, as microfluidicdevices typically do, one or more detection window or zone at which asignal, e.g., fluorescence, is monitored. This detection window or zoneoptionally includes a transparent cover allowing visual or opticalobservation and detection of the assay results, e.g., observation of acalorimetric, fluorometric or radioactive response, or a change in thevelocity of a calorimetric, fluorometric or radioactive component.

Another optional embodiment of the present invention involves use offluorescence correlation spectroscopy and/or confocal nanofluorimetrictechniques to detect fluorescence from the molecules in the microfluidicdevice. Such techniques are easily available (e.g., from Evotec,Hamburg, Germany) and involve detection of fluorescence from moleculesthat diffuse through the illuminated focus area of a confocal lens. Thelength of any photon burst observed will correspond to the time spent inthe confocal focus by the molecule. Various algorithms used for analysiscan be used to evaluate fluorescence signals from individual moleculesbased on changes in, e.g., brightness, fluorescence lifetime, spectralshift, FRET, quenching characteristics, etc.

The sensor or detection portion of the devices and methods of thepresent invention can optionally comprise a number of differentapparatuses. For example, fluorescence can be detected by, e.g., aphotomultiplier tube, a charge coupled device (CCD) (or a CCD camera), aphotodiode, or the like.

A photomultiplier tube is an optional aspect of the current invention.Photomultiplier tubes (PMTs) are devices which convert light (photons)into electronic signals. The detection of each photon by the PMT isamplified into a larger and more easily measurable pulse of electrons.PMTs are commonly used in many laboratory applications and settings andare well known to those in the art.

Another optional embodiment of the present invention comprises a chargecoupled device (CCD). CCD cameras can detect even very small amounts ofelectromagnetic energy (e.g., such that emitted by fluorophores). CCDcameras are made from semi-conducting silicon wafers that release freeelectrons when struck by light photons. The output of electrons islinearly directly proportional to the amount of photons that strike thewafer. This allows correlation between the image brightness and theactual brightness of the event observed. CCD cameras are very wellsuited for imaging of fluorescence emissions since they can detect evenextremely faint events, can work over a broad range of spectrum, and candetect both very bright and very weak events. CCD cameras are well knownto those in the art and several suitable examples include those made by:Stratagene (La Jolla, Calif.), Alpha-Innotech (San Leandro, Calif.), andApogee Instruments (Tucson, Ariz.) among others.

Yet another optional embodiment of the present invention comprises useof a photodiode to detect fluorescence from molecules in themicrofluidic device. Photodiodes absorb incident photons which causeelectrons in the photodiode to diffuse across a region in the diode thuscausing a measurable potential difference across the device. Thispotential can be measured and is directly related to the intensity ofthe incident light.

In some aspects, the detector measures an amount of light emitted fromthe material, such as a fluorescent or chemiluminescent material. Assuch, the detection system will typically include collection optics forgathering a light based signal transmitted through the detection windowor zone, and transmitting that signal to an appropriate light detector.Microscope objectives of varying power, field diameter, and focal lengthare readily utilized as at least a portion of this optical train. Thedetection system is typically coupled to a computer (described ingreater detail below), via an analog to digital or digital to analogconverter, for transmitting detected light data to the computer foranalysis, storage and data manipulation.

In the case of fluorescent materials such as labeled cells orfluorescence indicator dyes or molecules, the detector optionallyincludes a light source which produces light at an appropriatewavelength for activating the fluorescent material, as well as opticsfor directing the light source to the material contained in the channel.The light source can be any number of light sources that provides anappropriate wavelength, including lasers, laser diodes and LEDs. Otherlight sources are optionally utilized for other detection systems. Forexample, broad band light sources for light scattering/transmissivitydetection schemes, and the like. Typically, light selection parametersare well known to those of skill in the art.

The exact design or methodology appropriate to monitoring precipitationand/or precipitation blockages optionally depends upon the material atissue. Where precipitate can be viewed optically (e.g., using amicroscope), precipitate blockage can be directly monitored by simplyviewing one or more areas of microchannels through which material isflowed. Precipitate blockage is characterized by immobilization ofmaterial in a region of a microchannel. Materials (i.e., precipitates)such as proteins, nucleic acids, etc. can be made viewable byincorporation of labels such as fluorophores, radioactive labels,labeled antibodies, dyes, and the like (of course, other precipitatesare inherently fluorescent, etc.) and can similarly be directlymonitored by detecting, e.g., label signal levels in appropriateportions of microchannels through any of the detectionmeans/methods/procedures described above, and/or through use of anyother detection means available to those in the art.

Additionally, indirect detection/monitoring of precipitate blockages isalso optionally used. For example, controls comprising assay elementsfor a control assay can be flowed through a channel and the results ofthe assay monitored and compared to expected results. Where the resultsof the assay are not as predicted, or change markedly over time, it canbe inferred that precipitate blockage is interfering with the assaycomponents. Similarly, if experimental or assay components are capableof being, e.g., optically detected through fluorescence and the like,then their presence can be monitored in a certain area of microchannel(e.g., downstream from a junction where a material capable ofprecipitation is diluted, etc.). If the experimental/assay component isno longer detected or is detected in much lower amounts, then it can beinferred that a precipitate blockage has occurred upstream from thedetection area.

The detector can exist as a separate unit, but is preferably integratedwith the controller system, into a single instrument. Integration ofthese functions into a single unit facilitates connection of theseinstruments with a computer (described below), by permitting the use offew or a single communication port(s) for transmitting informationbetween the controller, the detector and the computer. Integration ofthe detection system with a computer system typically includes softwarefor converting detector signal information into assay resultinformation, e.g., concentration of a substrate, concentration of aproduct, presence of a compound of interest, presence of a precipitateblockage of a microchannel, interaction between various samples, or thelike.

D. Computer

As noted above, either, or both, the fluid direction system or thedetection system, as well as other aspects of the current inventiondescribed herein (e.g., fluid flow control, temperature control, etc.),are optionally coupled to an appropriately programmed processor orcomputer that functions to instruct the operation of these instrumentsin accordance with preprogrammed or user input instructions, receivedata and information from these instruments, and interpret, manipulateand report this information to a user. As such, the computer istypically appropriately coupled to one or more of the appropriateinstruments (e.g., including an analog to digital or digital to analogconverter as needed).

The computer optionally includes appropriate software for receiving userinstructions, either in the form of user input into set parameterfields, e.g., in a GUI, or in the form of preprogrammed instructions,e.g., preprogrammed for a variety of different specific operations. Thesoftware then converts these instructions to appropriate language forinstructing the operation of, e.g., the fluid direction and transportcontroller to carry out the desired operation.

For example, the computer is optionally used to direct a fluid directionsystem to control fluid flow, e.g., into and through a variety ofinterconnected microchannels (e.g., into and through the variousmicrochannels of the invention, such as specially configuredcross-sectional geometry areas and/or specific channel arrangements usedto reduce precipitate blockage of the microchannels, etc.).Additionally, the fluid direction system optionally directs fluid flowcontrolling which samples are contacted with each other and/or withvarious reagents, buffers, etc. in, e.g., a detection region or otherregion(s) in the microfluidic device. Furthermore, the fluid directionsystem optionally controls the coordination of movements of multiplefluids/molecules/etc. concurrently as well as sequentially. For example,the computer optionally directs the fluid direction system to direct themovement of at least a first member of a plurality of molecules into afirst member of a plurality of microchannels concurrent with directingthe movement of at least a second member of the plurality of moleculesinto one or more detection channel regions.

Additionally or alternatively, the fluid direction system directs themovement of at least a first member of the plurality of molecules intothe plurality of microchannels concurrent with incubating at least asecond member of the plurality of molecules or directs movement of atleast a first member of the plurality of molecules into the one or moredetection channel regions concurrent with incubating at least a secondmember of the plurality of molecules.

By coordinating channel switching, the computer-controlled fluiddirection system directs the movement of at least one member of theplurality of molecules into the plurality of microchannels and/or onemember into a detection region at a desired time interval, e.g., greaterthan 1 minute, about every 60 seconds or less, about every 30 seconds orless, about every 10 seconds or less, about every 1.0 seconds or less,or about every 0.1 seconds or less. Each sample, with appropriatechannel switching as described above, remains in the plurality ofchannels for a desired period of time, e.g., between about 0.1 minutesor less and about 60 minutes or more. For example, the samplesoptionally remain in the channels for a selected incubation time of,e.g., 20 minutes.

As another example, the computer optionally controls the application ofan AC electric field across a microchannel area (orthogonal to thedirection of fluid flow) where precipitation can occur. Such AC flow isoptionally directed by the computer to be applied only when aprecipitatable material (and/or a precipitate inducing material) ispresent in that region.

The computer optionally receives data from one or more sensors/detectorsincluded within the system, interprets the data, and either provides itin a user understood format, or uses that data to initiate furthercontroller instructions, in accordance with the programming, e.g., suchas in monitoring and control of flow rates (e.g., as involved indilution of materials in microchannels, etc.), temperatures, appliedvoltages, pressures, and the like.

In the present invention, the computer typically includes software forthe monitoring and control of materials in the various microchannels,etc. For example, the software directs channel switching to control anddirect flow as described above. Additionally the software is optionallyused to control electrokinetic, pressure-modulated, or the like,injection or withdrawal of material. The computer also typicallyprovides instructions, e.g., to the controller or fluid direction systemfor switching flow between channels to help achieve a high throughputformat.

In addition, the computer optionally includes software for deconvolutionof the signal or signals from the detection system. For example, thedeconvolution distinguishes between two detectably different spectralcharacteristics that were both detected, e.g., when a substrate andproduct comprise detectably different labels or where one fluorescentspecies is used to check for precipitate while another fluorescentspecies is used in a separate assay/experiment.

Any controller or computer optionally includes a monitor which is oftena cathode ray tube (“CRT”) display, a flat panel display (e.g., activematrix liquid crystal display, liquid crystal display), or the like.Data produced from the microfluidic device, e.g., indication of amicrochannel free of precipitate blockage, fluorographic indication ofbinding between selected molecules, etc., is optionally displayed inelectronic form on the monitor. Additionally, the data gathered from themicrofluidic device can be outputted in printed form. The data, whetherin printed form or electronic form (e.g., as displayed on a monitor),can be in various or multiple formats, e.g., curves, histograms, numericseries, tables, graphs and the like.

Computer circuitry is often placed in a box which includes, e.g.,numerous integrated circuit chips, such as a microprocessor, memory,interface circuits, etc. The box also optionally includes such things asa hard disk drive, a floppy disk drive, a high capacity removable drivesuch as a writeable CD-ROM, and other common peripheral elements.Inputting devices such as a keyboard or mouse optionally provide forinput from a user and for user selection of sequences to be compared orotherwise manipulated in the relevant computer system.

E. Example Integrated System

FIG. 2, Panels A, B, and C and FIG. 3 provide additional detailsregarding example integrated systems that optionally use the devices ofthe invention and optionally are used to practice the methods herein. Asshown, body structure 202 has main channels 204 and 206 disposedtherein. As stated previously, the arrangement and configuration of themicrochannels of the current invention can comprise a number ofdifferent possibilities and that displayed in FIG. 2 is but one possiblearrangement/configuration. As shown in FIG. 2, main channel 206comprises a microchannel whose cross-sectional geometry is configured toreduce the effects of precipitate formation (i.e., to keep blockagesfrom forming) due to accumulation of precipitate, e.g., that of DMSO orany other type of precipitation. Also as shown in FIG. 2, main channel204, is arranged with other microchannels (as detailed below) to allow,e.g., gradual dilutions in order to minimize formation of unwantedprecipitate blockages in the microchannel.

In FIG. 2, a sample or mixture of components, e.g., typically a buffer,sample, reagent, etc. typically also comprising DMSO or any otherprecipitatable material, is optionally flowed from pipettor channel 220,towards, e.g., reservoir 218, e.g., by applying a vacuum at reservoir218 (or another point in the system) or by applying appropriate voltagegradients or wicking arrangements, etc. (or a combination of suchforces). Alternatively, a vacuum, or appropriate pressure force, etc. isapplied at, e.g., reservoirs 222, 224, 226, or through pipettor channel220. Additional materials, such as buffer solutions, substratesolutions, enzyme solutions, test molecules, fluorescence indicator dyesor molecules and the like are optionally flowed from wells, e.g., 222,224, or 226 and into channel 206.

Such solutions (or, e.g., water) when flowed into main channel 206 cancause precipitation of material from the fluidic material alreadypresent in the main channel 204 (or, alternatively and/or additionally,a precipitate may form from the fluidic material flowed into mainchannel 206). For example, as explained above a fluidic materialcomprising DMSO is optionally flowed through channel 206. Fluidicmaterials flowed from, e.g., reservoir 226 to, e.g., dilute the fluidicmaterial in channel 206 may cause precipitation of the DMSO. However, asillustrated in FIG. 2, the fluidic material from reservoir 226 emptiesinto channel 206 in region 230. Region 230 comprises a microchannelregion of enlarged cross-sectional area (see above description of FIG. 1a). Such enlarged cross-sectional areas of channel 206 (i.e., regions228 and 230) prevent formation of precipitate blockages of channel 206and allow the free flow of the fluidic materials through the channel. Insome optional embodiments, an AC electric field is applied orthogonal tothe direction of fluid flow, e.g., in region 230 or in other areas (see,FIGS. 4 and 5 and accompanying description).

Alternatively, a sample or mixture of component, e.g., typically abuffer, sample, reagent, etc., is optionally flowed from pipettorchannel 220 towards, e.g., reservoir 214 by any flow methods asdescribed herein. Additional materials, such as buffer solutions,substrate solutions, enzyme solutions, test molecules, fluorescenceindicator dyes or molecules and the like, are optionally flowed fromwells, e.g., 208, 210, or 212 and into channel 204. Again, as describedabove for FIG. 1 (i.e., FIG. 1 b description, see, supra), arrangementsof such microchannels, etc. allow for gradual dilutions (or additions offluidic materials) to reach a desired concentration, etc. whilepreventing blockage of main channel 204 by precipitation. In otherwords, any precipitate formed is formed in small amounts at a timerather than all at once as would happen if, e.g., the fluidic materialin channel 204 were diluted in one large step to a final concentrationby a fluidic material from reservoir 208. Instead, as FIG. 2 a shows,the fluidic material in channel 204 is diluted in steps (i.e., throughadditions from reservoirs 208, 210, 212 and with shunting to wastereservoir 216).

The arrangement of channels depicted in FIG. 2 is only one possiblearrangement out of many which are appropriate and available for use inthe present invention. For example, the number and arrangement of, e.g.,microchannels comprising sources of fluidic materials for dilutionssteps and/or regions of larger cross-sectional area (both to preventprecipitate blockage of the microchannel) can all be altered dependingupon the specific parameters of the assays to be performed, the need forhigh throughput analysis, etc. Additional alternatives can be readilydevised, e.g., by combining the microfluidic elements described hereinwith other microfluidic devices described in the patents andapplications referenced herein. Furthermore, again, an AC electric fieldcan be applied orthogonal to the direction of fluid flow to help preventsticking of precipitates to microchannel walls (see, FIGS. 4 and 5 andaccompanying description).

Samples and materials are optionally flowed from the enumerated wells orfrom a source external to the body structure. As depicted, theintegrated system optionally includes pipettor channel 220, e.g.,protruding from body 202, for accessing a source of materials externalto the microfluidic system. Typically, the external source is amicrotiter dish or other convenient storage medium. For example, asdepicted in FIG. 3, pipettor channel 220 can access microwell plate 308,which, in the wells of the plate, optionally includes, e.g., samples,buffers, fluorescence dyes, various fluidic reagents to be interactedwith the samples, etc.

Detector 306 is in sensory communication with, e.g., main channels 204or 206, detecting signals resulting, e.g., from labeled materialsflowing through the detection region (e.g., indicating clear flow or noprecipitate blockages), changes in thermal parameters, fluorescence,etc. Detector 306 is optionally coupled to any of the channels orregions of the device where detection is desired (e.g., at intersectionsof microchannels where fluidic materials are to diluted, etc.). Detector306 can optionally detect any precipitate formation occurring channel204 and/or 206. Detector 306 is operably linked to computer 304, whichdigitizes, stores, and manipulates signal information detected bydetector 306, e.g., using any of the instructions described above or anyother instruction set, e.g., for determining precipitate blockages,concentration, molecular weight or identity, interaction between samplesand test molecules, or the like.

Fluid direction system 302 controls voltage, pressure, etc. (or acombination of such), e.g., at the wells of the systems or through thechannels of the system, or at vacuum couplings fluidly coupled to, e.g.,channel 204, 206 or any other channel described above. Optionally, asdepicted, computer 304 controls fluid direction system 302. In one setof embodiments, computer 304 uses signal information to select furtherparameters for the microfluidic system. For example, upon detecting theformation of a precipitate is detected in, e.g., channel 204, thedilution amounts, time, etc. can be adjusted to prevent any blockage ofthe microchannel by the precipitate.

Temperature control system 310 controls joule and/or non-joule heatingat, e.g., the wells of the systems or through the channels of the systemas described herein. Optionally, as depicted, computer 304 controlstemperature control system 310. In one set of embodiments, computer 304uses signal information to select further parameters for themicrofluidic system. For example, upon detecting the desired temperaturein a sample in, e.g., channel 204, the computer optionally directsaddition of, e.g., a diluting fluidic material, a potential bindingmolecule, fluorescence indicator dye, etc. into the system to be testedagainst one or more samples.

Monitor 316 displays the data produced by the microfluidic device, e.g.,graphical representation of, e.g., presence or non-presence ofprecipitate blockages, separation or non-separation of fluidicmaterials, interaction (if any) between samples, reagents, testmolecules, etc. Optionally, as depicted, computer 304 controls monitor316. Additionally, computer 304 is connected to and directs additionalcomponents such as printers, electronic data storage devices and thelike.

F. Assay Kits

The present invention also provides kits for utilizing the microfluidicdevices and methods of the invention. In particular, these kitstypically include microfluidic devices, systems, modules andworkstations, etc. A kit optionally contains additional components forthe assembly and/or operation of a multimodule workstation of theinvention including, but not restricted to robotic elements (e.g., atrack robot, a robotic armature, or the like), plate handling devices,fluid handling devices, and computers (including e.g., input devices,monitors, c.p.u., and the like).

Generally, the microfluidic devices described herein are optionallypackaged to include some or all reagents for performing the device'sfunctions. For example, the kits can optionally include any of themicrofluidic devices described along with assay components, buffers,reagents, enzymes, serum proteins, receptors, sample materials,antibodies, substrates, control material, spacers, buffers, immisciblefluids, etc., for performing assays, separations, etc. using themethods/devices of the invention, i.e., the methods/devices to preventand/or ameliorate formation of precipitate blockages. In the case ofprepackaged reagents, the kits optionally include pre-measured orpre-dosed reagents that are ready to incorporate into assays withoutmeasurement, e.g., pre-measured fluid aliquots, or pre-weighed orpre-measured solid reagents that can be easily reconstituted by theend-user of the kit.

Such kits also typically include appropriate instructions for using thedevices and reagents, and in cases where reagents (or all necessaryreagents) are not predisposed in the devices themselves, withappropriate instructions for introducing the reagents into thechannels/chambers/reservoirs/etc. of the device. In this latter case,these kits optionally include special ancillary devices for introducingmaterials into the microfluidic systems, e.g., appropriately configuredsyringes/pumps, or the like (in one embodiment, the device itselfcomprises a pipettor element, such as an electropipettor for introducingmaterial into channels/chambers/reservoirs/etc. within the device). Inthe former case, such kits typically include a microfluidic device withnecessary reagents predisposed in the channels/chambers/reservoirs/etc.of the device. Generally, such reagents are provided in a stabilizedform, so as to prevent degradation or other loss during prolongedstorage, e.g., from leakage. A number of stabilizing processes arewidely used for reagents that are to be stored, such as the inclusion ofchemical stabilizers (e.g., enzymatic inhibitors,microbicides/bacteriostats, anticoagulants, etc.), the physicalstabilization of the material, e.g., through immobilization on a solidsupport, entrapment in a matrix (e.g., a bead, a gel, etc.),lyophilization, or the like.

The elements of the kits of the present invention are typically packagedtogether in a single package or set of related packages. The packageoptionally includes written instructions for utilizing one or moredevice of the invention in accordance with the methods described herein.Kits also optionally include packaging materials or containers forholding the microfluidic device, system or reagent elements.

The discussion above is generally applicable to the aspects andembodiments of the invention described herein. Moreover, modificationsare optionally made to the methods and devices described herein withoutdeparting from the spirit and scope of the invention as claimed, and theinvention is optionally put to a number of different uses including thefollowing:

The use of a microfluidic system containing at least a first substrateand having a first channel and a second channel intersecting the firstchannel, at least one of the channels having at least onecross-sectional dimension in a range from 0.1 to 500 micrometer, inorder to test the effect of each of a plurality of test compounds on abiochemical system comprising one or more focused cells or particles.

The use of a microfluidic system as described herein, wherein abiochemical system flows through one of said channels substantiallycontinuously, providing for, e.g., sequential testing of a plurality oftest compounds.

The use of a microfluidic device as described herein to modulatereactions within microchannels/microchambers/reservoirs/etc.

The use of electrokinetic injection in a microfluidic device asdescribed herein to modulate or achieve flow in the channels.

The use of a combination of wicks, electrokinetic injection and pressurebased flow elements in a microfluidic device as described herein tomodulate, focus, or achieve flow of materials, e.g., in the channels ofthe device.

An assay utilizing a use of any one of the microfluidic systems orsubstrates described herein.

While the foregoing invention has been described in some detail forpurposes of clarity and understanding, it will be clear to one skilledin the art from a reading of this disclosure that various changes inform and detail can be made without departing from the true scope of theinvention. For example, all the techniques and apparatus described abovecan be used in various combinations. All publications, patents, patentapplications, patent documents, or other documents cited in thisapplication are incorporated by reference in their entirety for allpurposes to the same extent as if each individual publication, patent,patent application, patent document, or other document were individuallyindicated to be incorporated by reference for all purposes.

1. A microfluidic device which is structurally configured to reduceprecipitate blockage in a microchannel of the device, comprising: a) afirst microchannel comprising a first region upstream of one or moresecond region, which second region is upstream of one or more thirdregion, which second region comprises a greater cross-sectional areathan the first region or the third region; b) at least a secondmicrochannel, which second microchannel fluidly intersects with thesecond region of the first microchannel; c) a source of a first fluidicmaterial, which source is fluidly coupled to the first microchannel; d)a source of a second fluidic material, which source is fluidly coupledto the second microchannel, wherein the first and second fluidicmaterials form a precipitate when mixed; e) a fluid direction systemwhich, during operation of the device, controllably moves the firstfluidic material through the first microchannel and the second fluidicmaterial through the second microchannel into the second region of thefirst microchannel thereby forming a mixture and a precipitate in thesecond region of the first microchannel which precipitate is present ata concentration which does not inhibit flow of the mixture into thethird region of the microchannel.
 2. The microfluidic device of claim 1,wherein the first fluidic material comprises DMSO.
 3. The microfluidicdevice of claim 1, wherein the second fluidic material comprises abuffer.
 4. The microfluidic device of claim 1, wherein the secondfluidic material comprises water.
 5. The microfluidic device of claim 1,wherein the second region of the first microchannel is at least 2 timesor more greater in cross-sectional area than the first or third regionof the first microchannel.
 6. The microfluidic device of claim 1,wherein the second region of the first microchannel is at least about 5times or more greater in cross-sectional area than the first or thirdregion of the first microchannel.
 7. The microfluidic device of claim 1,wherein the second region of the first microchannel is at least about 10times or snore greater in cross-sectional area than the first or thirdregion of the first microchannel.
 8. The microfluidic device of claim 1,wherein the second region of the first microchannel is at least about 15times or more greater in cross-sectional area than the first or thirdregion of the first microchannel.
 9. The microfluidic device of claim 1,wherein the second region of the first microchannel is at least about 20times or more greater in cross-sectional area than the first or thirdregion of the first microchannel.
 10. The microfluidic device of claim1, wherein the cross-sectional area of the second region is great enoughto prevent precipitate blockage of the microchannel by the precipitateconcentration.
 11. The microfluidic device of claim 1, the devicefurther comprising wherein the first microchannel is structurallyconfigured to permit application of an AC electric field orthogonal to adirection of fluid flow in the first microchannel.